adjust.beta: Adjust Beta for cell mixture. Returns beta of the average...

In brentp/celltypes450: Deal with cell types in 450K data.

Description

For simply estimating the cell-type proportions, see estimate.cell.proportions.

Usage

adjust.beta(B, top_n = 500, mc.cores = 2, cell.coefs = NULL,
  omega.mix = NULL)

Arguments

B	matrix of beta values (n_probes * n_samples) rownames must be the illumina cg id or the chrom:position
top_n	number of probes from cell.coefs to use
mc.cores	number of cores to use for parallelization
cell.coefs	path to tab-delimited file containind DMR-probes for the cell types of interest. Ignored if omega.mix is provided. system.file("extdata", "houseman-dmrs.txt", package="celltypes450")
omega.mix	pre-specified matrix of cell-type coefficients. If not specified, this will be estimated from the data.

Value

matrix of adjusted beta values

brentp/celltypes450 documentation built on May 13, 2019, 5:11 a.m.